Additional files · 2014. 9. 12. · (XLSX) Table S6 – KO annotation of unigenes. (XLSX) Table S7 – Tag analysis statistics. (XLSX) Table S8 –Differentially expressed tags were

Additional files

Figure S1 - Characteristic analysis of the homology search for transcriptome unigenes

against the NR database

(A)E-value distribution of BLAST hits for each unique sequence with a cut-off E-value of

1.0E-5; (B) Similarity in distribution of the top BLAST hits for each sequence; (C) Species

distribution is shown as a percentage of the total homologous sequences with an E-value of at

least 1.0E-5. We used the first hit of each sequence for analysis.

Figure S2 - Histogram presentation of the (A) gene ontology (GO) and (B) clusters of

orthologous group (COG) classification

(A) The results are listed in three categories: biological process, cellular component and

molecular function. (B) Out of 28,779 BLAST hits, 10,784 sequences are classified into 25

COG categories.

Figure S3 – Different components of the raw tags and distribution of distinct tags in

each sample.

Figure S4 –Distribution of total tags and distinct tags in each sample.

Figure S5 – The gene expression level in all comparisons.

Table S1 – Sample collection and RNA extraction strategy.

(XLSX)

Table S2 – The specific primers used in qRT-PCR to validate differentially expressed

genes.

(XLSX)

Table S3 – Use of Sanger sequencing to verify the quality of RNA-seq results.

(XLSX)

Table S4 – Top hits obtained by BLASTX against NR database for the total unigenes.

(XLSX)

Table S5 – The GO annotation of unigenes.

(XLSX)

Table S6 – KO annotation of unigenes.

(XLSX)

Table S7 – Tag analysis statistics.

(XLSX)

Table S8 –Differentially expressed tags were filtered with the absolute value of

log2Ratio ≥ 1 based on the FDR < 0.001 from the tandem comparison of samples i.e.,

LD vs DT, PD vs DT, ED vs LD, ED vs PD, ED vs DT, LD vs PD.

(XLSX)

Table S9 – GO enrichment analysis in different comparisons.

(DOC)

Table S10 – KO enrichment analysis in different comparisons.

(XLSX)

Table S11– Differentially expressed genes filtered accordingtothe absolute value of

log2Ratio ≥ 1 based on the FDR < 0.001 among ED, LD and PD were annotated

indifferent databases.

(XLSX)

Table S12– Putatively identified Heat shock protein were filtered with the absolute

value of log2Ratio ≥ 1 based on the FDR < 0.001 among ED, LD and PD.

(XLSX)